Research graph
References from A systematic strategy for the investigation of vaccines and drugs targeting bacteria. Local targets link to admitted publications; unresolved targets remain external evidence.
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Human hepatitis B vaccine from recombinant yeast
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Adenovirus (RI-APC-ARD) vaccine for prevention of acute respiratory Illness. 1. Vaccine development
1957 · External reference
Combined live measles, mumps, and rubella virus vaccines
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Finding potential therapeutic targets against shigella flexneri through proteome exploration
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Pangenome and immuno-proteomics analysis of Acinetobacter baumannii strains revealed the core peptide vaccine targets
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In silico approach for mining of potential drug targets from hypothetical proteins of bacterial proteome
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Microbial genetics: genetic strategies for antibacterial drug discovery
10.1038/nrg1086 · 2003 · External reference
Essential proteins and possible therapeutic targets of Wolbachia endosymbiont and development of FiloBase-a comprehensive drug target database for Lymphatic filariasis
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Identification of potential drug targets and vaccine candidates in Clostridium botulinum using subtractive genomics approach
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10.1016/j.mib.2008.09.006 · External reference
DNA replication proteins as potential targets for antimicrobials in drug-resistant bacterial pathogens
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Transcriptomics as a tool to discover new antibacterial targets
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10.1093/nar/gkq1172 · 2010 · External reference
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10.1093/nar/gkh024 · 2004 · External reference
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10.1016/j.ejps.2017.11.014 · 2018 · External reference
Subtractive proteomics and immunoinformatics revealed novel B-cell derived T-cell epitopes against Yersinia enterocolitica: an etiological agent of Yersiniosis
10.1016/j.micpath.2018.09.042 · 2018 · External reference
A comprehensive overview of online resources to identify and predict bacterial essential genes
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DEG 5.0, a database of essential genes in both prokaryotes and eukaryotes
10.1093/nar/gkn858 · 2008 · External reference
DEG 10, an update of the database of essential genes that includes both protein-coding genes and noncoding genomic elements
10.1093/nar/gkt1131 · 2013 · External reference
Metabolic pathway analysis: basic concepts and scientific applications in the post-genomic era
10.1021/bp990048k · 1999 · External reference
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10.1093/nar/28.1.27 · 2000 · External reference
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Protein localization analysis of essential genes in prokaryotes
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10.1093/bioinformatics/btq249
10.1093/bioinformatics/btq249 · External reference
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10.1002/prot.21018 · 2006 · External reference
Predicting subcellular localization of proteins using machine-learned classifiers
10.1093/bioinformatics/btg447 · 2004 · External reference
10.1038/nmeth.1701
10.1038/nmeth.1701 · External reference
Advantages of combined transmembrane topology and signal peptide prediction—the Phobius web server
10.1093/nar/gkm256 · 2007 · External reference
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10.1186/gb-2007-8-5-r68 · 2007 · External reference
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10.1093/bioinformatics/bty938 · 2018 · External reference
Ten years of pan-genome analyses
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Analysis of pan-genome to identify the core genes and essential genes of Brucella spp.
10.1007/s00438-015-1154-z · 2016 · External reference
Potential druggable proteins and chimeric vaccine construct prioritization against Brucella melitensis from species core genome data
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Toward a high-quality pan-genome landscape of Bacillus subtilis by removal of confounding strains
2020 · External reference
PGAP-X: extension on pan-genome analysis pipeline
2018 · External reference
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10.1093/nar/gkw255 · 2016 · External reference
Targeting the bacterial orisome in the search for new antibiotics
10.3389/fmicb.2017.02352 · 2017 · External reference
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The role of the N-terminal domains of bacterial initiator DnaA in the assembly and regulation of the bacterial replication initiation complex
10.3390/genes8050136 · 2017 · External reference
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10.1093/nar/gky1014
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Ori-Finder: a web-based system for finding oriCs in unannotated bacterial genomes
10.1186/1471-2105-9-79 · 2008 · External reference
Recent development of Ori-Finder system and DoriC database for microbial replication origins
10.1093/bib/bbx174 · 2018 · External reference
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Using bacterial transcriptomics to investigate targets of host-bacterial interactions in caenorhabditis elegans
10.1038/s41598-019-41452-2 · 2019 · External reference
DNA damage repair and drug efflux as potential targets for reversing low or intermediate ciprofloxacin resistance in E. coli K-12
10.3389/fmicb.2018.01438 · 2018 · External reference
10.1007/s00253-019-10120-w
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Making life difficult for Clostridium difficile: augmenting the pathogen’s metabolic model with transcriptomic and codon usage data for better therapeutic target characterization
10.1186/s12918-017-0395-3 · 2017 · External reference
Proteomic and transcriptomic experiments reveal an essential role of RNA degradosome complexes in shaping the transcriptome of Mycobacterium tuberculosis
10.1093/nar/gkz251 · 2019 · External reference
Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis
10.1186/s12864-019-6105-3 · 2019 · External reference
Drug repurposing of bromodomain inhibitors as potential novel therapeutic leads for lymphatic filariasis guided by multispecies transcriptomics
10.1128/msystems.00596-19 · 2019 · External reference
Transcriptomics analysis of propiconazole-treated Cochliobolus sativus reveals new putative azole targets in the plant pathogen
10.1007/s10142-019-00660-9 · 2019 · External reference
10.1038/nature05769
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A trans-acting riboswitch controls expression of the virulence regulator PrfA in Listeria monocytogenes
10.1016/j.cell.2009.08.046 · 2009 · External reference
10.1038/nrmicro1265
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10.1016/j.gene.2019.05.036
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10.1038/nbt1268 · External reference
Purine analogs targeting the guanine riboswitch as potential antibiotics against Clostridioides difficile
10.1016/j.ejmech.2017.11.079 · 2018 · External reference
Genome-wide bioinformatics analysis of FMN, SAM-I, glmS, TPP, lysine, purine, cobalamin, and SAH riboswitches for their applications as allosteric antibacterial drug targets in human pathogenic bacteria
10.1080/14728222.2019.1618274 · 2019 · External reference
Riboswitch Scanner: an efficient pHMM-based web-server to detect riboswitches in genomic sequences
10.1093/bioinformatics/btv640 · 2016 · External reference
Riboswitches: from living biosensors to novel targets of antibiotics
10.1016/j.gene.2016.07.035 · 2016 · External reference
10.1093/bioinformatics/btz093
10.1093/bioinformatics/btz093 · External reference
Metabolic host responses to infection by intracellular bacterial pathogens
2013 · External reference
Comparative genomic analysis of Tropheryma whipplei strains reveals that diversity among clinical isolates is mainly related to the WiSP proteins
10.1186/1471-2164-8-349 · 2007 · External reference
VFDB 2012 update: toward the genetic diversity and molecular evolution of bacterial virulence factors
10.1093/nar/gkr989 · 2011 · External reference
MvirDB—a microbial database of protein toxins, virulence factors and antibiotic resistance genes for bio-defence applications
10.1093/nar/gkl791 · 2006 · External reference
VirulentPred: a SVM based prediction method for virulent proteins in bacterial pathogens
10.1186/1471-2105-9-62 · 2008 · External reference
VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines
10.1186/1471-2105-8-4 · 2007 · External reference
Combating tigecycline resistant Acinetobacter baumannii: a leap forward towards multi-epitope based vaccine discovery
10.1016/j.ejps.2019.02.023 · 2019 · External reference
Identification of putative vaccine candidates against Helicobacter pylori exploiting exoproteome and secretome: a reverse vaccinology based approach
10.1016/j.meegid.2015.03.027 · 2015 · External reference
ExPASy: SIB bioinformatics resource portal
10.1093/nar/gks400 · 2012 · External reference
Cloning and expression of multiple integral membrane proteins from Mycobacterium tuberculosis in Escherichia coli
10.1110/ps.041022305 · 2005 · External reference
10.1006/jmbi.2000.4315
10.1006/jmbi.2000.4315 · External reference
The HMMTOP transmembrane topology prediction server
10.1093/bioinformatics/17.9.849 · 2001 · External reference
10.1016/j.biologicals.2017.08.004
10.1016/j.biologicals.2017.08.004 · External reference
In silico screening of antigenic B-cell derived T-cell epitopes and designing of a multi-epitope peptide vaccine for Acinetobacter nosocomialis
10.1016/j.jmgm.2019.107477 · 2020 · External reference
10.3201/eid0503.990310
10.3201/eid0503.990310 · External reference
Vaxign: the first web-based vaccine design program for reverse vaccinology and applications for vaccine development
2010 · External reference
SPAAN: a software program for prediction of adhesins and adhesin-like proteins using neural networks
10.1093/bioinformatics/bti028 · 2004 · External reference
AllerTOP v. 2—a server for in silico prediction of allergens
10.1007/s00894-014-2278-5 · 2014 · External reference
AlgPred: prediction of allergenic proteins and mapping of IgE epitopes
10.1093/nar/gkl343 · 2006 · External reference
SORTALLER: predicting allergens using substantially optimized algorithm on allergen family featured peptides
10.1093/bioinformatics/bts326 · 2012 · External reference
A novel strategy of epitope design in Neisseria gonorrhoeae
10.6026/97320630005077 · 2010 · External reference
Model for vaccine design by prediction of B-epitopes of IEDB given perturbations in peptide sequence, in vivo process, experimental techniques, and source or host organisms
10.1155/2014/768515 · 2014 · External reference
Reverse vaccinology and subtractive genomics-based putative vaccine targets identification for Burkholderia pseudomallei Bp1651
10.1016/j.micpath.2018.09.033 · 2018 · External reference
Contriving multiepitope subunit vaccine by exploiting structural and nonstructural viral proteins to prevent Epstein-Barr virus-associated malignancy
10.1002/jcp.27380 · 2019 · External reference
10.1002/jmr.893
10.1002/jmr.893 · External reference
10.1093/nar/gkx346
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ProPred1: prediction of promiscuous MHC Class-I binding sites
10.1093/bioinformatics/btg108 · 2003 · External reference
ProPred: prediction of HLA-DR binding sites
10.1093/bioinformatics/17.12.1236 · 2001 · External reference
MHCPred: a server for quantitative prediction of peptide–MHC binding
10.1093/nar/gkg510 · 2003 · External reference
expansion and model-centric curation of the comprehensive antibiotic resistance database
10.1093/nar/gkw1004 · 2017 · External reference
Centrality in the host–pathogen interactome is associated with pathogen fitness during infection
10.1038/ncomms14092 · 2017 · External reference
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The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored
10.1093/nar/gkq973 · 2010 · External reference
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10.1107/s0907444998009378 · 1998 · External reference
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10.1093/nar/gkj059 · 2006 · External reference
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M4T: a comparative protein structure modeling server
10.1093/nar/gkm341 · 2007 · External reference
SWISS-MODEL: an automated protein homology-modeling server
10.1093/nar/gkg520 · 2003 · External reference
ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins
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10.1038/356083a0 · 1992 · External reference
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Pepitope: epitope mapping from affinity-selected peptides
10.1093/bioinformatics/btm493 · 2007 · External reference
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PatchDock and SymmDock: servers for rigid and symmetric docking
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FireDock: a web server for fast interaction refinement in molecular docking
10.1093/nar/gkn186 · 2008 · External reference
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DrugBank 3.0: a comprehensive resource for ‘omics’ research on drugs
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Protein–ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment
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Exploring the reasons for decrease in binding affinity of HIV-2 against HIV-1 protease complex using interaction entropy under polarized force field
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Pharmacophore-based virtual screening toward the discovery of novel anti-echinococcal vompounds
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